Audio playback issues when editing quick swipe comp folders.

My new Imac running ML 10.8.2 is having issues when I want to edit drums tracks that I have grouped together. I recorded the tracks before grouping them. After opening group settings and checking the 'editing (selection)' and 'phase locked audio boxes' I get a spinning beach ball for 10sec. I then expand my take folders to start editing and the computer performance becomes very sluggish and playback stutters and crackles, sometimes turning well recorded drum tracks into a non recognizable mush as various tracks are playing at once. It appears that when I group the tracks together prior to recording and check the necessary boxes that quick swipe editing works fine. When I open old projects on my new iMac that were recorded running Snow Leopard and my old MacBook Pro that use comp editing, it all works smoothly and I can continue editing no problems. So does this mean that these new tracks are somehow corrupted? How can I rescue them? I can't figure it out! I used to be able to set up groups and edit after recording raw on my old setup, surely this is some kind of bug caused from the upgrade to 10.2.8 and/or Logic 9.1.8? It's nothing to do with my Pro 40 interface I don't think as I unplug it and the problem is still audible through built in speakers. Might the recording be corrupt due to connecting Saffire pro 40 via a firewire 800 to thunderbolt adapter?
I've tried copying/pasting regions into a new project, the regions are all the same length, there are no plugins on the channel strips, the recordings sound fine until I try to edit them, sample rate is consistent (24/48). The main difference to making editing possible seems to be grouping prior to recording or not, which shouldn't make a difference should it? Anyone who can shed a little light on this situation, I will be forever appreciative to! I've got work that needs doing ASAP!
My setup is:
iMac, i7 3.1Ghz, 16GB RAM, 1TB HDD, Mountain Lion 10.2.8
Logic Pro 9.1.8
Focusrite Saffire Pro 40 (connected to thunderbolt port via thunderbolt==>firewire 800 adapter)

Anyone?
This is serioulsy BS, it was all working fine before I went and upgraded everything and now it is worse than prior to upgrading. That's not how it's supposed to work.

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